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Developers Workshop 2016

June 20 - 24, 2016

School of Aquatic and Fisheries Sciences

Seattle, Washington, USA

Contact [email protected] for registration and questions.

Important notice for travellers

Changes in University of Hawaii grant administration procedures have created additional hurdles for reimbursement of non-UH employee travel expenses. Please contact Dodie Lau [email protected] before purchasing air tickets or reserving hotel accomodations; the sooner the better.

Objectives

  • Plan development of instructional videos
  • Coordination of TMB and ADMB Projects
  • Developments in MCMC implementations
  • Foundation Meeting

Remote access

Breakout groups (Google Doc)

https://docs.google.com/document/d/1b0jWcGYNh-jCcJdgx7m8DehWu44AS4jhNbi-205yTiY/edit

Wordpress site

http://admb-project-org.admb-foundation.org/

Schedule

Monday, June 20 Opening and Instructional Videos

|Time|Activity| |:---|:-----------|:--------------------------------------------| |9:00AM|Opening: revision and approval of agenda; assignment of repporteurs| |10:00AM|Arni Magnusson: ADMB-IDE, rolling out version 11.5, people willing to help out? Also, a quick review of TMB-IDE.| |11:00AM|Discussion| |1:00PM|Lunch| |2:30PM|Mollie Brooks: The glmmTMB package for flexible mixed models in R| |3:30AM|Jim Thorson: Progress with spatio-temporal analysis of multivariate (e.g., species or sizes) data using TMB, and how statistical developments might help| |4:30PM|Discussion| |5:00PM|End|

Tuesday, June 21 Miscellaneous Topics

|Time|Activity| |:---|:-----------|:--------------------------------------------| |9:00AM|Overview of R packages based on ADMB and TMB. Discuss potential new R package, TMBextras. Also write up (or find existing write-up?) description of how to create a user-level C++ library.| |10:00AM|Creation of Instructional videos - Chair Hans Skaug| |11:00AM|Split into breakout groups| |Noon|Lunch| |1:00PM|Breakout groups| |2:00-3.00PM|PLENARY SESSION: Subgroups report on initial ideas, progress, and goals| |3:00-5:00PM|Breakout groups|

Wednesday, June 22 TMB / ADMB Coordination

Time Activity
9:00AM Johnoel Ancheta
Breakout sessions
5:00PM End

Possible Breakout sessions

  • ADMB-IDE 11.5
  • cppad_mixed
  • instructional videos
  • Nvidia GPU
  • TMB with GPU
  • Non-normal RE (rotational Bayes)
  • Cross validation methods
  • MCMC (Riemann with Langevin updates)
  • XSSA demo of Sibert
  • GLMM/TMB Package: another distribution could be added; hurdle model generalized Poisson
  • Atomic functions and use of derivatives within the template (e.g., newton raphson's within the template)
  • Debugging demonstration and documentation reference
  • Posfun in TMB
  • Protocol for contributing code
  • Website issues

Thursday, June 23 The use of AD in statistical software

Time Speaker Title
9:00AM David Fournier The use of higher order AD to develop a multinomial like M estimator for the analysis of compositonal data with an application to fisheries management models
10:00AM Brad Bell cppad_mixed: A C++ Package for Laplace Approximation of Mixed
11:00AM Break
11:30AM Bob Carpenter Implementation and Application of Reverse-Mode Autodiff in Stan
1:00PM Lunch
2:00PM Kasper Kristensen TMB: Automatic Differentiation and Laplace Approximation
3:00PM Cole Monnahan Hamiltonian Monte Carlo in ADMB and TMB: current status and future directions
4:00PM Matthew Supernaw ATL and Higher-Order Reverse Mode AD
5:00PM End of day

Friday, June 24 Foundation Meeting and Conclusion

Time Activity
9:00AM Discussion: How can the TMB and ADMB Projects support one another (Chair Jim Ianelli)
Outreach
More training workshops
Fund raising
Possible relocation of project
2:00PM ADMB Foundation Meeting
Discuss Articles of Incorporation
Relocation of project
Election of officers
4:00PM End

Participants

Name Notes
Dave Fournier
John Sibert Curmudgeon
Jim Ianelli
Steve Martell
Anders Nielsen
Hans Skaug
Arni Magnusson
Kasper Kristensen Developer TMB
Brad Bell Developer cppad
Mollie Brooks
Matthew Supernaw Developer atl
Teresa A'mar
Chris Grandin
Casper Berg
Cole Monnahan
Jim Thorson
Bob Carpenter Stan Project
Johnoel Ancheta
Gavin Fay
Allan Hicks IPHC
Kyle Foreman